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(-) Description

Title :  CRYSTAL STRUCTURE OF A. FULGIDUS PERIPLASMIC BINDING PROTEIN MODA WITH BOUND MOLYBDATE
 
Authors :  K. Hollenstein, D. C. Frei, K. P. Locher
Date :  24 Jan 07  (Deposition) - 06 Mar 07  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.60
Chains :  Asym./Biol. Unit :  A
Keywords :  Soluble Protein, Ligand Binding Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  K. Hollenstein, D. C. Frei, K. P. Locher
Structure Of An Abc Transporter In Complex With Its Binding Protein.
Nature V. 446 213 2007
PubMed-ID: 17322901  |  Reference-DOI: 10.1038/NATURE05626
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - UPF0100 PROTEIN AF_0094
    Atcc: 49558
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: AF_0094
    Organism Scientific: ARCHAEOGLOBUS FULGIDUS DSM 4304
    Organism Taxid: 224325
    Strain: VC-16, DSM 4304, JCM 9628, NBRC 100126

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 5)

Asymmetric/Biological Unit (3, 5)
No.NameCountTypeFull Name
1MG1Ligand/IonMAGNESIUM ION
2MOO1Ligand/IonMOLYBDATE ION
3NO33Ligand/IonNITRATE ION

(-) Sites  (5, 5)

Asymmetric Unit (5, 5)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREASN A:149 , ASP A:152 , ARG A:215 , SER A:216 , HOH A:588BINDING SITE FOR RESIDUE NO3 A 722
2AC2SOFTWARELYS A:36 , ARG A:82 , LYS A:83 , HOH A:610 , HOH A:652BINDING SITE FOR RESIDUE NO3 A 723
3AC3SOFTWARELYS A:112 , ASN A:113 , GLY A:319 , GLN A:320 , GLU A:321 , HOH A:618BINDING SITE FOR RESIDUE NO3 A 724
4AC4SOFTWAREGLU A:167 , PRO A:173 , ASP A:177 , HOH A:435 , HOH A:609BINDING SITE FOR RESIDUE MG A 725
5AC5SOFTWAREALA A:40 , GLY A:41 , SER A:42 , ALA A:68 , GLY A:69 , SER A:70 , ALA A:90 , ASP A:153 , PRO A:154 , CYS A:155 , GLU A:218 , TYR A:236BINDING SITE FOR RESIDUE MOO A 701

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2ONR)

(-) Cis Peptide Bonds  (2, 2)

Asymmetric/Biological Unit
No.Residues
1Tyr A:100 -Pro A:101
2Val A:324 -Pro A:325

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2ONR)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2ONR)

(-) Exons   (0, 0)

(no "Exon" information available for 2ONR)

(-) Sequences/Alignments

Asymmetric/Biological Unit
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
  Number of residues per labelling interval =   
  UniProt sequence: complete  aligned part    
   Show mapping: SCOP domains CATH domains Pfam domains Secondary structure (by author)
SAPs(SNPs) PROSITE motifs Exons
(details for a mapped element are shown in a popup box when the mouse pointer rests over it) 
Chain A from PDB  Type:PROTEIN  Length:314
 aligned with WTPA_ARCFU | O30142 from UniProtKB/Swiss-Prot  Length:342

    Alignment length:338
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214       224       234       244       254       264       274       284       294       304       314       324       334        
           WTPA_ARCFU     5 GGVVKIRILILLMLALFLLGCSSNVNTNVKLKVFHAGSLTEPMKAFKRAFEEKHPNVEVQTEAAGSAATIRKVTELGRKADVIATADYTLIQKMMYPEFANWTIMFAKNQIVLAYRNDSRYADEINSQNWYEILKRPDVRFGFSNPNDDPCGYRSLMAIQLAELYYNDPTIFDELVAKNSNLRFSEDNGSYVLRMPSSERIEINKSKIMIRSMEMELIHLVESGELDYFFIYKSVAKQHGFNFVELPVEIDLSSPDYAELYSKVKVVLANGKEVTGKPIVYGITIPKNAENRELAVEFVKLVISEEGQEILRELGQEPLVPPRADTAVPSLKAMVEVS 342
               SCOP domains d                        2onra_ A: Molybdate-binding protein, ModA                                                                                                                                                                                                                                                                                 SCOP domains
               CATH domains 2                        onrA01 A:29-112,A:284-342 Periplasmic binding protein-like II                      2onrA02 A:113-283 Periplasmic binding protein-like II                                                                                                                      2onrA01 A:29-112,A:284-342                                  CATH domains
               Pfam domains -----------------------------------SBP_bac_1-2onrA01 A:40-313                                                                                                                                                                                                                                                        ----------------------------- Pfam domains
         Sec.struct. author .------------------------...eeeeeeee..hhhhhhhhhhhhhhhh..eeeeeeeehhhhhhhhhhh......eeee.hhhhhhhhhh.......eeeee..eeeee.............hhhhhhh.....eeee....hhhhhhhhhhhhhhhhhh...hhhhhhhhhhh...eeee..eeeee..hhhhh......eeee.hhhhhhhhhhh....eeeeehhhhhhh..eeee........hhhhhhhhh.eeee.....eee....eeeee......hhhhhhhhhhhhhhhhhhhhhhhh...eeeeeee...hhhhh...ee. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2onr A  29 G------------------------HMNVKLKVFHAGSLTEPMKAFKRAFEEKHPNVEVQTEAAGSAATIRKVTELGRKADVIATADYTLIQKMMYPEFANWTIMFAKNQIVLAYRNDSRYADEINSQNWYEILKRPDVRFGFSNPNDDPCGYRSLMAIQLAELYYNDPTIFDELVAKNSNLRFSEDNGSYVLRMPSSERIEINKSKIMIRSMEMELIHLVESGELDYFFIYKSVAKQHGFNFVELPVEIDLSSPDYAELYSKVKVVLANGKEVTGKPIVYGITIPKNAENRELAVEFVKLVISEEGQEILRELGQEPLVPPRADTAVPSLKAMVEVS 342
                            |        -         -     |  34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214       224       234       244       254       264       274       284       294       304       314       324       334        
                            |                       30                                                                                                                                                                                                                                                                                                                        
                           29
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
    → Modified Residue (blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
  x → Chemical Group (purple background, 'x', labelled with number + name, e.g. ACE or NH2)
  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

(-) SCOP Domains  (1, 1)

Asymmetric/Biological Unit
(-)
Class: Alpha and beta proteins (a/b) (23833)

(-) CATH Domains  (1, 2)

Asymmetric/Biological Unit
(-)
Class: Alpha Beta (26913)

(-) Pfam Domains  (1, 1)

Asymmetric/Biological Unit
(-)
Clan: PBP (391)

(-) Gene Ontology  (5, 5)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (WTPA_ARCFU | O30142)
molecular function
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
    GO:1901359    tungstate binding    Interacting selectively and non-covalently with tungstate.
biological process
    GO:0006810    transport    The directed movement of substances (such as macromolecules, small molecules, ions) or cellular components (such as complexes and organelles) into, out of or within a cell, or between cells, or within a multicellular organism by means of some agent such as a transporter, pore or motor protein.
cellular component
    GO:0016020    membrane    A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.
    GO:0005886    plasma membrane    The membrane surrounding a cell that separates the cell from its external environment. It consists of a phospholipid bilayer and associated proteins.

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 Related Entries

(-) Entries Sharing at Least One Protein Chain (UniProt ID)

UniProtKB/Swiss-Prot
        WTPA_ARCFU | O30142: 2onk 2ons 3cij

(-) Related Entries Specified in the PDB File

2ons SOLUBLE PROTEIN 2